153 Works

Data in support of capturing functional strategies and compositional dynamics in vegetation demographic models

Polly Buotte
This collection includes output from simulations of the vegetation demographic model CLM-FATES, plot census data from the Soaproot Saddle site in the Southern Sierra Critical Zone Observatory, and a database of tree trait values synthesized from the literature. The data were used in support of a manuscript in preparation for submission to Biogeosciences with the provisional title "Capturing functional strategies and compositional dynamics in vegetation demographic models".

Learning protein fitness models from evolutionary and assay-labeled data

Chloe Hsu, Hunter Nisonoff, Clara Fannjiang & Jennifer Listgarten
Machine learning-based models of protein fitness typically learn from either unlabeled, evolutionarily-related sequences, or variant sequences with experimentally measured labels. For regimes where only limited experimental data are available, recent work has suggested methods for combining both sources of information. Toward that goal, we propose a simple combination approach that is competitive with, and on average outperforms more sophisticated methods. Our approach uses ridge regression on site-specific amino acid features combined with one density feature...

Phylogeny and character evolution of the neotropical fern genus Cyclodium (Dryopteridaceae)

Amabily Bohn, Alan R. Smith, Fernando B. Matos, Robbin C. Moran & Paulo H. Labiak
Cyclodium is a neotropical fern genus with 13 species, most of them distributed in the Amazonian lowlands, particularly in the Guianan region and along the border with the Andes. It belongs to the polybotryoid clade of Dryopteridaceae, being unique within this clade by a combination of characters related to rhizome growth, leaf dimorphism, anastomosing venation, and peltate indusia. Here we present a molecular phylogenetic hypothesis for Cyclodium resulting from Bayesian and Maximum Likelihood analyses, using...

Contrasting patterns of risk from human and non-human predators shape temporal activity of prey

Kaitlyn Gaynor, Alex McInturff & Justin Brashares
Spatiotemporal variation in predation risk arises from interactions between landscape heterogeneity, predator densities, and predator hunting mode, generating landscapes of fear for prey species that can have important effects on prey behaviour and ecosystem dynamics. As widespread apex predators, humans present a significant source of risk for hunted animal populations. Spatiotemporal patterns of risk from hunters can be overlapping or contrast with patterns of risk from other predators. Human infrastructure can also reshape spatial patterns...

Microcoleus (Cyanobacteria) form watershed-wide populations without strong gradients in population structure

Keith Bouma-Gregson, Alex Crits-Christoph, Matthew Olm, Mary Power & Jillian Banfield
The relative importance of separation by distance and by environment to population genetic diversity can be conveniently tested in river networks, where these two drivers are often independently distributed over space. To evaluate the importance of dispersal and environmental conditions in shaping microbial population structures, we performed genome-resolved metagenomic analyses of benthic Microcoleus-dominated cyanobacterial mats collected in the Eel and Russian River networks (California, USA). The 64 Microcoleus genomes were clustered into three species that...

PSP FIELDS Digital Fields Board (DFB) AC-coupled Searchcoil Magnetometer, SCM, Bandpass filtered, Medium Frequency, High Gain, u-component, Sensor coordinates, Level 2 (L2), 0.873813 s Data

Stuart D. Bale, Thierry Dudok de Wit, David M. Malaspina, Alexandros Chasapis, Marc Pulupa, Timothy Quinn & Peter Schroeder
PSP FIELDS Digital Fields Board, DFB, SCMumfhg data. The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. DFB AC bandpass data consist of peak and average values of the absolute value of bandpassed time series waveform data over a time interval equal to the reporting cadence. The AC bandpass data have the peak response frequency of each bin reported in the metadata. The...

PSP FIELDS Digital Fields Board (DFB) AC-coupled Differential Voltage, V1-V2 Antennae, Dipole Mode, Bandpass filtered, High Gain, Sensor coordinates, Level 2 (L2), 0.873813 s Data

Stuart D. Bale, David M. Malaspina, Alexandros Chasapis, Marc Pulupa, Timothy Quinn & Peter Schroeder
PSP FIELDS Digital Fields Board, DFB, dV12 data: The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. DFB AC bandpass data consist of peak and average values of the absolute value of bandpassed time series waveform data over a time interval equal to the reporting cadence. The AC bandpass data have the peak response frequency of each bin reported in the metadata. The...

Data from: Acrobatic squirrels learn to leap and land on tree branches without falling

Robert Full, Nathaniel Hunt, Lucia Jacobs & Judy Jinn
Arboreal animals often leap through complex canopies to travel and avoid predators. Their success at making split-second potentially life-threatening decisions of biomechanical capability depends on skillful use of acrobatic maneuvers and learning from past efforts. Here, we found that free-ranging fox squirrels (Sciurus niger) leaping across novel, simulated branches decided where to launch by balancing a trade-off between gap distance and branch-bending compliance. Squirrels quickly learned to modify impulse generation upon repeated leaps from novel,...

The contribution of environmental and dispersal filters on beta diversity patterns in Amazonian tree communities

Juan Ernesto Guevara Andino, Nigel C.A. Pitman, Hans Ter Steege, Manuel Peralvo, Carlos Cerón & Paul V.A. Fine
Environmental filters (e.g. climate, geomorphology and soils) and dispersal filters are key determinants of species distributions of Amazonian tree communities. However, a comprehensive analysis of the role of environmental and dispersal filters is needed to understand the ecological and evolutionary processes that drive phylogenetic and taxonomic turnover of Amazonian tree communities. We compare measures of taxonomic and phylogenetic beta diversity in 40 one-hectare plots to test the relative importance of climate, soils, geology, geomorphology, pure...

Data from: Genetic and ecogeographic controls on species cohesion in Australia’s most diverse lizard radiation

Ivan Prates, Sonal Singhal, M. Raquel Marchán-Rivadeneira, Maggie R. Grundler, Craig C. Moritz, Steve Donnellan & Daniel L. Rabosky
Species vary extensively in geographic range size and climatic niche breadth. If range limits are primarily determined by climatic factors, species with broad climatic tolerances and those that track geographically widespread climates should have large ranges. However, large ranges might increase the probability of population fragmentation and adaptive divergence, potentially decoupling climatic niche breadth and range size. Conversely, ecological generalism in widespread species might lead to higher gene flow across climatic transitions, increasing species’ cohesion...

Junco hyemalis Bone Microstructure

Leeann Louis, Rauri Bowie & Robert Dudley
Migration is the primary strategy that temperate birds use to avoid overwintering under harsh conditions. As a consequence, migratory birds have evolved specific morphological features in their wings and skeleton. However, in addition to varying in overall shape and size, bone can also change at the microstructural level by, for example, increasing its thickness. Such changes are critical to preventing fracture and damage under repeated loading (fatigue), yet it is not known whether migratory behaviour...

White Sands desert lizard thermal data

Alex Gunderson, Eric Riddell, Michael Sears & Erica Bree Rosenblum
Traits often contribute to multiple functions, complicating our understanding of the selective pressures that influence trait evolution. In the Chihuahuan Desert, predation is thought to be the primary driver of cryptic light coloration in three White Sands lizard species relative to the darker coloration of populations on adjacent dark soils. However, coloration also influences radiation absorption and thus animal body temperatures. We combined comparative physiological experiments and biophysical models to test for thermal consequences of...

PSP FIELDS Digital Fields Board (DFB) AC-coupled Searchcoil Magnetometer, SCM, Cross Spectra, d-component, e-component, High Gain, Sensor coordinates, Level 2 (L2), 0.873813 s Data

Stuart D. Bale, Thierry Dudok de Wit, David M. Malaspina, Alexandros Chasapis, Marc Pulupa, Timothy Quinn & Peter Schroeder
The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. DFB AC cross spectra data for a pair of input channels consist of: Power spectral densities, Real and imaginary parts of the spectral cross term, Coherence, Phase. The Level 2 data products have been calibrated for: The Hanning window used in the spectral calculation, DFB in-band gain, DFB analog filter gain response, DFB digital...

Phylogeny and biogeography of Acaena (Rosaceae) and its relatives: Evidence of multiple long-distance dispersal events across the globe

Javier Jauregui Lazo & Daniel Potter
Acaena Mutis ex L. (Rosaceae) is the most complex and ecologically variable genus in the subtribe Sanguisorbinae. Although it has been the subject of several taxonomic treatments, the largest phylogenetic analysis to date only sampled a small fraction of the total global diversity (five to seven out of 45 to 50 species). This study included most of the species to elucidate the phylogenetic relationships of Acaena and biogeographic patterns in Sanguisorbinae. Phylogenetic analyses of non-coding...

PSP FIELDS Digital Fields Board (DFB) DC-coupled Searchcoil Magnetometer, SCM, Bandpass filtered, Low Frequency, High Gain, u-component, Sensor coordinates, Level 2 (L2), 0.873813 s Data

Stuart D. Bale, Thierry Dudok de Wit, David M. Malaspina, Alexandros Chasapis, Marc Pulupa, Timothy Quinn & Peter Schroeder
PSP FIELDS Digital Fields Board, DFB, SCMulfhg data: The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. For a full description of the FIELDS experiment. DFB AC spectra data consist of power spectral densities as a function of frequency and time. These spectra are averaged over both frequency and time. The Level 2 data products contained in this data file have been calibrated...

PSP FIELDS Digital Fields Board (DFB) DC-coupled Searchcoil Magnetometer, SCM, Cross Spectra, e-component, f-component, High Gain, Sensor coordinates, Level 2 (L2), 0.873813 s Data

Stuart D. Bale, Thierry Dudok de Wit, David M. Malaspina, Alexandros Chasapis, Marc Pulupa, Timothy Quinn & Peter Schroeder
PSP FIELDS Digital Fields Board (DFB), SCMXlfhg ⨯ SCMXlfhg cross spectra data: The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. For a full description of the FIELDS experiment. DFB DC cross spectra data for a pair of input channels consist of: Power spectral densities, Real and imaginary parts of the spectral cross term, Coherence, and Phase where all as a function of...

PSP FIELDS Digital Fields Board (DFB) AC-coupled Searchcoil Magnetometer, SCM, Cross Spectra, d-component, f-component, High Gain, Sensor coordinates, Level 2 (L2), 0.873813 s Data

Stuart D. Bale, Thierry Dudok de Wit, David M. Malaspina, Alexandros Chasapis, Marc Pulupa, Timothy Quinn & Peter Schroeder
The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. DFB AC cross spectra data for a pair of input channels consist of: Power spectral densities, Real and imaginary parts of the spectral cross term, Coherence, Phase. The Level 2 data products have been calibrated for: The Hanning window used in the spectral calculation, DFB in-band gain, DFB analog filter gain response, DFB digital...

PSP FIELDS Fluxgate Magnetometer (MAG) Magnetic Field Vectors, Radial-Tangential-Normal, RTN, Coordinates, Full Resolution, Level 2 (L2), 3.413 ms Data

Stuart D. Bale, Robert J. MacDowall, Andriy Koval, Marc Pulupa, Timothy Quinn & Peter Schroeder
Parker Solar Probe FIELDS Instrument Suite Fluxgate Magnetometer, MAG, Data: The time resolution of the MAG time series data varies with instrument mode ranging from 2.289 samples/s to 292.9 samples/s. These two data sampling rates corresponding to 2 samples or 256 samples per 0.874 s where 0.874 s is equal to 2^25 divided 38.4 MHz. The Magnetometer has four ranges: ±1024 nT, ±4096 nT, ±16,384 nT, and ±65,536 nT. The Magnetometer Range is selected by...

PSP FIELDS Digital Fields Board (DFB) DC-coupled Searchcoil Magnetometer, SCM, Spectra, Low Frequency, High Gain, e-component, Sensor coordinates, Level 2 (L2), 6.99054 s Data

Stuart D. Bale, Thierry Dudok de Wit, David M. Malaspina, Katherine A. Goodrich, Marc Pulupa, Timothy Quinn & Peter Schroeder
PSP FIELDS Digital Fields Board, DFB, SCMelfhg data: The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. For a full description of the FIELDS experiment. DFB DC spectra data consist of power spectral densities as a function of frequency and time. These spectra are averaged over both frequency and time. The Level 2 data products contained in this data file have been calibrated...

PSP FIELDS Digital Fields Board (DFB) DC-coupled Differential Voltage Waveform, Dipole Mode, Level 2 (L2), 3.413 ms Data

Stuart D. Bale, David M. Malaspina, Katherine A. Goodrich, Marc Pulupa, Timothy Quinn & Peter Schroeder
PSP FIELDS Digital Fields Board, DFB, Differential Voltage data: The DFB is the low frequency, less than 75 kHz, component of the FIELDS experiment on the Parker Solar Probe spacecraft. For a full description of the FIELDS experiment. DFB DC spectra data consist of power spectral densities as a function of frequency and time. These spectra are averaged over both frequency and time. The Level 2 data products contained in this data file have been...

PSP FIELDS F2 Time Domain Sampler (F2 TDS) 100 bit/s Summary Telemetry, Level 2 (L2), 8 s Data

Stuart D. Bale, Keith Goetz & Joshua Lynch
PSP FIELDS F2 100 bps Summary Telemetry Data.

PSP FIELDS Fluxgate Magnetometer (MAG) Magnetic Field Vectors, Spacecraft, SC, Coordinates, Full Resolution, Level 2 (L2), 3.413 ms Data

Stuart D. Bale, Robert J. MacDowall, Andriy Koval, Marc Pulupa, Timothy Quinn & Peter Schroeder
Parker Solar Probe FIELDS Instrument Suite Fluxgate Magnetometer, MAG, Data: The time resolution of the MAG time series data varies with instrument mode ranging from 2.289 samples/s to 292.9 samples/s. These two data sampling rates corresponding to 2 samples or 256 samples per 0.874 s where 0.874 s is equal to 2^25 divided 38.4 MHz. The Magnetometer has four ranges: ±1024 nT, ±4096 nT, ±16,384 nT, and ±65,536 nT. The Magnetometer Range is selected by...

Moorea Biocode

Neil Davies
The core goal of the Moorea Biocode Project (MBP) is to genetically barcode every non-microbial species on Moorea. We will thus create a professionally produced, verifiable (vouchered) All Taxa Biotic Inventory (ATBI) of Moorea (Output 1), together with the informatics services needed for ATBI and biocode-enabled research in Model Ecosystems (Outcome 2). We will also design a long-term plan (business model) to ensure the financial self-sustainability of biocode services, and carry out proof of concept...

Data from: The influence of spatially heterogeneous anthropogenic change on bill size evolution in a coastal songbird

Phred Benham & Rauri Bowie
Natural history collections provide an unparalleled resource for documenting population responses to past anthropogenic change. However, in many cases, traits measured on specimens may vary temporally in response to a number of different anthropogenic pressures or demographic processes. While teasing apart these different drivers is challenging, approaches that integrate analyses of spatial and temporal series of specimens can provide a robust framework for examining whether traits exhibit common responses to ecological variation in space and...

Na lidar and MIGHTI/ICON investigation on turbopause tidal waves

Tao Yuan, Michael H. Stevens, Cristoph R. Englert & Thomas J. Immel
Local full diurnal coverage of temperature variations across the turbopause (~ 90 km to 115 km altitude) is achieved by combining the nocturnal observations of a Sodium (Na) Doppler lidar on the Utah State University (USU) campus (41.7?N, 248.2?E) and NASA MIGHTI/ICON daytime observations made in the same vicinity. In this paper, utilizing this hybrid dataset during summer 2020 between June 12th and July 15th, we retrieve the temperature signatures of diurnal and semidiurnal tidal...

Registration Year

  • 2021
    153

Resource Types

  • Dataset
    147
  • Text
    4
  • Output Management Plan
    2

Affiliations

  • University of California, Berkeley
    152
  • Laboratory for Atmospheric and Space Physics
    30
  • University of Orléans
    25
  • Affiliated Hospital of Nantong University
    4
  • West China Hospital of Sichuan University
    4
  • Zhejiang University
    4
  • Central South University
    4
  • Fudan University
    4
  • Capital Medical University
    4
  • Goddard Space Flight Center
    4